Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Tfe3

Cell type

Cell type Class
Liver
Cell type
Liver
MeSH Description
A large lobed glandular organ in the abdomen of vertebrates that is responsible for detoxification, metabolism, synthesis and storage of various substances.

Attributes by original data submitter

Sample

source_name
Liver tissue
diet intervention
9 days FPC diet
genotype
Control
aav8 injection
GFP (2.5e11 GC)
feeding state when sacrificed
Ad lib
chip antibody
TFE3 (Sigma HPA023881)
chip or input sample
ChIP

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Mice were then sacrificed ad lib and livers were harvested. Nuclei lysates were then fixed and sonicated. Chromatin was then saved for input or subject to immunoprecipitation (ChIP) with TFE3 antibody. DNA was then isolated for both input and ChIP samples. Libraries were prepared using NEBNext Ultra II DNA Library Prep Kit for Illumina with NEBNext set 1 and 2 indexes. Sequencing was then done on an Illumina NextSeq 550, via single-read sequencing (75 cycles).

Sequencing Platform

instrument_model
NextSeq 550

mm10

Number of total reads
24794135
Reads aligned (%)
99.0
Duplicates removed (%)
10.5
Number of peaks
7765 (qval < 1E-05)

mm9

Number of total reads
24794135
Reads aligned (%)
98.8
Duplicates removed (%)
10.6
Number of peaks
7892 (qval < 1E-05)

Base call quality data from DBCLS SRA